HsaINT0120874 @ hg19
Intron Retention
Gene
ENSG00000167081 | PBX3
Description
pre-B-cell leukemia homeobox 3 [Source:HGNC Symbol;Acc:8634]
Coordinates
chr9:128725291-128729655:+
Coord C1 exon
chr9:128725291-128725380
Coord A exon
chr9:128725381-128728109
Coord C2 exon
chr9:128728110-128729655
Length
2729 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
AACTGTGTTTCTCCTTTCAGGCT
3' ss Score
11.45
Exon sequences
Seq C1 exon
GTGGATACCCTCCGTCATGTTATCAATCAGACGGGAGGCTACAGTGATGGCCTTGGAGGAAATTCACTGTACAGTCCACATAATTTAAAT
Seq A exon
GTGAGTACTCTGGGGAGTCAGCTGTAGGAGAACAGTGTCAGGTAAACAGTGACTAATAAAGAAATTAATAGCCATTTGACCTGGCTTCTCATCTTCTTGGCAGGTAGGGAAGGCAGCGTCTTTGCTGCACTTTTATTTTAAGAACCTAAATGCTTGATGCCGTCTAGATACCCTTAGAAGTCCTCATAGATGCCCAGAAATGGCTGGTGTCCTGTCATCAGCAGGGACTTAAGCATCAGCCCATTAAGACGCCATTTCCTACCATCAGTGCTGTGCTCCAGGGAGACGGTAGAAAACAGGTCATTTATCTTAGAACCAGGCAGCGGGAAAAATTCCCAAACAGAACTCAGGTGAAGGTGGTAAGTTTGGAGAATCCCAGGCAGACCAGCAAACCAAGCTAAACAAATAATTGTGTTATTAAAAGCATCTTGCTGTATTGTCAATGTGGGATGCACAACATATTTGACAATTTTAATTATGGAGGAAATAATTTTAACTTTTGTAACTACTTCACTACAACTTTACCTTTCCCTCCACTGACATGGATGGAAAATGGCAAAACACACAGCTCTGGAAAAGGGGGAAGGGGGCAGGGGAGCAGGTCATCGTGGTGGTGCTGCGGGGTGTGGTGGATGGAGTCTGGGGTTCTAGACTTAGGAAGGAAATTAACTGCCCAGCTCACGGTAGTAGACTCAGGAAGAAAATGGGCAAAATTCTTCCTTTTTAGGGCCTTGGCTTGCTACGAGAGTAAATATTAATGATTTAAAAAGTGATTGAGGATGTTCAATTGTAAAGGGAAAAAAGGACCATTAAATACTCAAATCTTTTACATTTGAAATGTCAAATCTTTCTTTTTGGGCTTATAAATAACTCATAATAACCCACAACAAACCATATAAAAAGCCTTTTAGTTGCATTTCTCCTTTTTCATTTAAGTGTTTTGAAATGCTTCAGAGAATGTGCGATATCCTTATCAACATGATAAAATATGAAACTGTGATTGCCTGCAGCATTTTACAGACATGAATTCCATCTTCACTGATGAGGCTTGATAAGGCGCTGTTGTATAATACAGTGCATAATCTCAAACCACCAGAGTAAGGATTAATTTATTTTGAAAAAAAAGAATGCTTGCTGACAACCTCTCCTCCAGCTGCCATGCTGGGTAAAAATATTGTACATTTGTTGTTTATAAATTTGGATAAAAGAGGAATGATGTTTACTTCAGATGGAATATCTTTAGACTTGTATCTGTGTGAGAGTTTTTCTTTTCCTAAGTAGATTTTCATACCTGAGGGGGGAAACAGCTTACCTTTTAGAGAAGAGGATTTCTGAGAGTCCACCGAACACACATGGGCATGTCATTAGCCAACCTGGCAAAACAGAGGCTTTAAAACAATACCACCATAGCTTTTTTTTTTTTTTAAATACTGTTTCCTTTTGTTTTTCCTAACCTGAATTTGATATGCCTCAAGCCTGGAAAATCCTCTTCCCTTAGGGTCTGGTCATCTCTGTGGGGTTCTTAGGTCATAGAGGTAGAAAAGGTGCTTTGCATGCCAACTCTGCAGTGAATTAGAAGACAGGGAGTTCTCCAGGAACTGTGATCACAGAAGAAGAAACAATGGCTGCCACATGCTCATCTAGGAGCTGTATCTAGGCTGGGCAGGGAATCTAGACAAGAGTTCTCAGCAGCCTGGCAGCCCAGGCCTGAAAGAGGGCATTTTGGATGGACTTGCAGAGGAAGTTGCAAATAGATGTGAGGGAGGCAGGAGGCACCTTATGACCCACCCTGACATTGGTGTAGGAGGTCCGGGTCTGGGGGCAGCATGGCGGCAGAGGGTGGTTGGTGCTGCAGGCACGGGGAGCCTGCTCACCCTCACCTCCTCTCCAGAAAGGCCTGCCCCATCACTTCCACTCAGTGTTCCCCAACTCACGAGGCTGGCACCTCCCTCTTCCTGACTGACATAAAAATATGTAGCGACAAGCTGTCTGCCACAGCAGAAATCTGATCAGACATTGATTTCAGCAATTGCCACTATAGGCCAAGACATAAGGCAAATTTGTTTCTGAGTACGGTTATTGCTGCTGCAGGTCTGAGGCAGGAAGGGCCAGCAGCATGTGGAAGGTGGGAGCAACATCCCAAATAGGAGCCTCAGCCACAGATAATTGGAATACAGATTTTAACAGTGTGTGCTGCTCTGCGGCTCATGCATTTTCATTCTGGAAGATCCTATTTGGAGGGAAATTCTGGCCTTCACTTTCCAAGGGTTACAGTAGCTGGCTGTCAGGCGTGTATGGAAAAAGGGTGGGCAACTGCTTCTCTATGGAAATGATGATTAAGCCGGGGTGAAGTTTAGACTTCATGGAGCCCTGGGTTTCGCTGAGGCATTGCATTGAGCTTCTCCACTGCTCCCTTCTGAAGAGATTTCTTTTTGAGTCACTTTAGTTTTACCAGCAGATCAAAGGCCGAGCTCGATGCCAGCATGGGCCTCGCTGAAGCCCTTCTTCGGCGTGTTGATTTATTGCCAAGACTTTACTTGATGGGATGGATTTGTTTTACATGCATTTAATCCCACTTTAACACATGCTGCCAACTCCTGCCACAGTGGGTTTAGAAAATACATTTTGCTAATGCATCTCTGCTCTCATGTTGTCATCCGGGTGTTTTAAATTGGGGAGTAGAATTAATATGTAGACGTGCACCCGTTGAACTGTGTTTCTCCTTTCAG
Seq C2 exon
GCTAATGGAGGCTGGCAGGACGCAACAACTCCATCTTCTGTGACTTCTCCTACAGAAGGCCCAGGAAGTGTGCACTCGGATACCTCTAACTAATCTCTGGCCACACTTTTCCCTGAGCTACATGCCTTGATAAGTGCATTCAGAGCAATAGGAGGAAAAGGAAAGCGTTTTTGTAGCCCACCATCTACAGCTTTACTGTAAAACCTTGTCTTATTCGAGAACTTGGTAAATCTGTTTTTTAAGGAATCATAATCATTTGTATTTATACTTAAAAACACACAATGTTAAAAAAAATAAAGCACTTTATCCAATTAGGCCAAGATTTAACATTGTTGACAGTCCTGTAGCTATTTTATCATAATTTATTATCAATATTTTACATTAATGGTTTCACAGTTGCCAATTACTTGGCCTTAAGGGTAAAAAGTACAATATACACTAAACCTCAACCGTTAAAGCAGATGCAAAAATTCACCTCACCTAAATTGAACTTCTTGCATATTTCCATTACTGACTTGGATTGTCTTTCTTTCATATCACTAATGGAGTTGGAATAAAGAGCTGTTTGCCTATCCCTGTTAATGATGGTTGTGTTTAAGAATCTTCCTCGTCACGTTTGTGTTCAGATCTCTTATGTTATAATTAGATCAGAGACTGGTAGCATCGTTTCTCTCTCTGAAAGCACCAGTGCCCAGAGTCTGCTCGGTAATAAAATTATGGATCCAGATTGTTCTGAGAGACGAAGATACTTGCTGCTGATAGAGGTGAAAACGAGATTGATCCGTCTGGGGTTTTACGGTGTGCACTGGGTGCTGCACAGACTTGTCAAGGTTTGCTACGTCCTCTGGGCATCTGCAAAAGGCCCTGCTCTCTGGAGTGTTGTATATAGTGTAGCAAAAGAGTATTTATACATCCCACCAATCAAAACACAGCTTTATTACCTCATGCGAACTCATACAAACCAATAGAATTTCAACATGTTCTGTAGCTTAGAGTGCTCACTTACTACCTCTGAACAATACTCACGCTGTAGTTTGTCTCTTTCTTATCTTTTTGCATCTTGTAATTAACTCTTTGTTTCCCTTCATAAAATGTAATGTACATTGTAATCTTTTAAAAGAAAAATCAGGGTTGCACTTGCAACTTTTAAAAAACCGAGTGTGGAAACATTGGGTCTTAATTCAACACAGGATCGGTAAAACTGTTGTAAATACTGAGAAACATTTTGAATGTTCTTCATCTTATTACTAATCCATGCAAAAAAAAAAAAAAAAGCAGCGACTAATTGTGATGCATTCAGATTTCAGTATTCAGTACTGTATATTTCACCCTGTGTAATGGGGCCCCCTCTCCTTTCTCTCTTTTTGTATTGTATGCGATTCTGAAACTGATTGAGTCATGAAAATAATTTGTGGCGGTGATTCTAATGTATTAAAAACGTTTCGTGTTCCTTTCTAACTGGATTACACCCTGGATTGAAAAAGTCTTCCTCGTGGTAGTTATATGTAGTTTCAAACATGAATAAACTTTTTGCTTTCATGATTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167081-PBX3:NR_024123:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.885 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)